{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":207381307,"defaultBranch":"master","name":"viral-pipelines","ownerLogin":"broadinstitute","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2019-09-09T18:50:16.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/393552?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1725541424.0","currentOid":""},"activityList":{"items":[{"before":"2137472a9c40d7fb1d3626a8685b91a8e5bdd000","after":"4eb51c2c115a224673e6771c827bef4c6e287d01","ref":"refs/heads/dp-genbank","pushedAt":"2024-09-05T21:19:52.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"oops","shortMessageHtmlLink":"oops"}},{"before":"f6d210530c25cc923a2821999a91811078fc67b1","after":"2137472a9c40d7fb1d3626a8685b91a8e5bdd000","ref":"refs/heads/dp-genbank","pushedAt":"2024-09-05T21:12:55.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"add new outputs to assembly table: assembly_method_version, biosample_accession, biosample_attributes_tsv","shortMessageHtmlLink":"add new outputs to assembly table: assembly_method_version, biosample…"}},{"before":"cd041acf3de7dfa227989368667f75b08976bf59","after":"f6d210530c25cc923a2821999a91811078fc67b1","ref":"refs/heads/dp-genbank","pushedAt":"2024-09-05T14:04:16.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"oops: add actual workflow","shortMessageHtmlLink":"oops: add actual workflow"}},{"before":"7bbfee45cec99fd89945d9e9a845e32fe0153bf8","after":"cd041acf3de7dfa227989368667f75b08976bf59","ref":"refs/heads/dp-genbank","pushedAt":"2024-09-05T14:03:08.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"initial layout of genbank_single workflow","shortMessageHtmlLink":"initial layout of genbank_single workflow"}},{"before":null,"after":"6f8b0ae4e5095f2f3b2faaad38f8a859629e8441","ref":"refs/heads/dp-demux","pushedAt":"2024-09-05T13:03:44.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"drop members from sample table if empty cleaned bam","shortMessageHtmlLink":"drop members from sample table if empty cleaned bam"}},{"before":"bb3cbe606379a930483ad193124140e0f0baa55d","after":"7bbfee45cec99fd89945d9e9a845e32fe0153bf8","ref":"refs/heads/dp-genbank","pushedAt":"2024-09-05T12:55:23.000Z","pushType":"push","commitsCount":42,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"Merge pull request #552 from broadinstitute/dp-demux\n\ndemux_deplete small updates","shortMessageHtmlLink":"Merge pull request #552 from broadinstitute/dp-demux"}},{"before":"c709399dfaab5cf8c343717f46a50e56d2732b26","after":"cf704e8cc75c5bd471b8384ab4e71ad517d49908","ref":"refs/heads/ct-bugfix-depletion-nproc-limit","pushedAt":"2024-08-23T23:29:21.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"tomkinsc","name":"Chris Tomkins-Tinch","path":"/tomkinsc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/53064?s=80&v=4"},"commit":{"message":"set export OPENBLAS_NUM_THREADS=1 in fastqc task","shortMessageHtmlLink":"set export OPENBLAS_NUM_THREADS=1 in fastqc task"}},{"before":"09c626071e8829edd5a1c8538ea62d3d88615860","after":"c709399dfaab5cf8c343717f46a50e56d2732b26","ref":"refs/heads/ct-bugfix-depletion-nproc-limit","pushedAt":"2024-08-23T23:05:22.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"tomkinsc","name":"Chris Tomkins-Tinch","path":"/tomkinsc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/53064?s=80&v=4"},"commit":{"message":"add export OPENBLAS_NUM_THREADS=1 to illumina_demux task","shortMessageHtmlLink":"add export OPENBLAS_NUM_THREADS=1 to illumina_demux task"}},{"before":"33aa2f15e5e74d24557dc692129ee67a998e5464","after":"09c626071e8829edd5a1c8538ea62d3d88615860","ref":"refs/heads/ct-bugfix-depletion-nproc-limit","pushedAt":"2024-08-23T22:33:01.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"tomkinsc","name":"Chris Tomkins-Tinch","path":"/tomkinsc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/53064?s=80&v=4"},"commit":{"message":"bump viral-core 2.3.2->2.3.3; bump viral-classify 2.2.4.2 -> 2.2.5","shortMessageHtmlLink":"bump viral-core 2.3.2->2.3.3; bump viral-classify 2.2.4.2 -> 2.2.5"}},{"before":null,"after":"33aa2f15e5e74d24557dc692129ee67a998e5464","ref":"refs/heads/ct-bugfix-depletion-nproc-limit","pushedAt":"2024-08-23T21:30:53.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"tomkinsc","name":"Chris Tomkins-Tinch","path":"/tomkinsc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/53064?s=80&v=4"},"commit":{"message":"attempt at fixing OpenBLAS-related nproc limit\n\nattempt at fixing OpenBLAS-related nproc limit\nsee: https://github.com/numpy/numpy/issues/14474","shortMessageHtmlLink":"attempt at fixing OpenBLAS-related nproc limit"}},{"before":"22aa08c6399f045022f0a478421dce72bd3ad443","after":null,"ref":"refs/heads/dp-demux","pushedAt":"2024-08-22T16:56:20.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"}},{"before":"5623df085c6eb1383dce34cf5bdbe045fda8f60e","after":"7bbfee45cec99fd89945d9e9a845e32fe0153bf8","ref":"refs/heads/master","pushedAt":"2024-08-22T16:24:30.000Z","pushType":"pr_merge","commitsCount":11,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"Merge pull request #552 from broadinstitute/dp-demux\n\ndemux_deplete small updates","shortMessageHtmlLink":"Merge pull request #552 from broadinstitute/dp-demux"}},{"before":"842b59a6bc6b5f2e1aab6a3824fe0eab8826dd8f","after":"22aa08c6399f045022f0a478421dce72bd3ad443","ref":"refs/heads/dp-demux","pushedAt":"2024-08-22T14:23:00.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"need to skip dnax build on uber-workflow that uses demux_deplete","shortMessageHtmlLink":"need to skip dnax build on uber-workflow that uses demux_deplete"}},{"before":"df04d034f96f302edd3f3324899f4d225d6d8a5f","after":"842b59a6bc6b5f2e1aab6a3824fe0eab8826dd8f","ref":"refs/heads/dp-demux","pushedAt":"2024-08-22T13:54:58.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"current dxWDL doesnt like write_json, skip demux_deplete for dxWDL","shortMessageHtmlLink":"current dxWDL doesnt like write_json, skip demux_deplete for dxWDL"}},{"before":"d9f0d386749288e760a3f4ee445c5103f02bde1b","after":"df04d034f96f302edd3f3324899f4d225d6d8a5f","ref":"refs/heads/dp-demux","pushedAt":"2024-08-22T13:41:07.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"fix parsing of wdl Pair objects are serialized","shortMessageHtmlLink":"fix parsing of wdl Pair objects are serialized"}},{"before":"5623df085c6eb1383dce34cf5bdbe045fda8f60e","after":"d9f0d386749288e760a3f4ee445c5103f02bde1b","ref":"refs/heads/dp-demux","pushedAt":"2024-08-22T13:24:13.000Z","pushType":"push","commitsCount":7,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"add read counts to library table","shortMessageHtmlLink":"add read counts to library table"}},{"before":null,"after":"5623df085c6eb1383dce34cf5bdbe045fda8f60e","ref":"refs/heads/dp-demux","pushedAt":"2024-08-22T11:47:30.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"Merge pull request #551 from broadinstitute/dp-demux\n\ndemux_deplete: make depletion optional, load biosample metadata to tables","shortMessageHtmlLink":"Merge pull request #551 from broadinstitute/dp-demux"}},{"before":"1d747a46a3e3b765e740653503bd48d302b0106e","after":null,"ref":"refs/heads/dp-demux","pushedAt":"2024-08-21T18:00:19.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"}},{"before":"bb3cbe606379a930483ad193124140e0f0baa55d","after":"5623df085c6eb1383dce34cf5bdbe045fda8f60e","ref":"refs/heads/master","pushedAt":"2024-08-21T16:08:48.000Z","pushType":"pr_merge","commitsCount":31,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"Merge pull request #551 from broadinstitute/dp-demux\n\ndemux_deplete: make depletion optional, load biosample metadata to tables","shortMessageHtmlLink":"Merge pull request #551 from broadinstitute/dp-demux"}},{"before":"f588bbd202f68d7356a24df480763a76dab7d7bc","after":"1d747a46a3e3b765e740653503bd48d302b0106e","ref":"refs/heads/dp-demux","pushedAt":"2024-08-21T10:41:41.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"parameterize table names","shortMessageHtmlLink":"parameterize table names"}},{"before":"7ccffdb8d9b7abfd4c67c318379464456de68c65","after":"f588bbd202f68d7356a24df480763a76dab7d7bc","ref":"refs/heads/dp-demux","pushedAt":"2024-08-21T01:50:18.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"code cleanup and reporting lines","shortMessageHtmlLink":"code cleanup and reporting lines"}},{"before":"87b568a5488730960d0167d23f06e0b5fa329dd4","after":"7ccffdb8d9b7abfd4c67c318379464456de68c65","ref":"refs/heads/dp-demux","pushedAt":"2024-08-21T01:43:35.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"move code blocks closer together","shortMessageHtmlLink":"move code blocks closer together"}},{"before":"6eb1940b99cc0946f5cddf2a2c5153b34edb66b3","after":"87b568a5488730960d0167d23f06e0b5fa329dd4","ref":"refs/heads/dp-demux","pushedAt":"2024-08-21T01:29:28.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"properly handle NA/NaN values in pandas dataframe","shortMessageHtmlLink":"properly handle NA/NaN values in pandas dataframe"}},{"before":"95a5171d3f918dbf78cb211a563daf864b25d083","after":"6eb1940b99cc0946f5cddf2a2c5153b34edb66b3","ref":"refs/heads/dp-demux","pushedAt":"2024-08-21T00:32:42.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"debug","shortMessageHtmlLink":"debug"}},{"before":"74d6d57c115ab5802c797663f748cf12ebab37f1","after":"95a5171d3f918dbf78cb211a563daf864b25d083","ref":"refs/heads/dp-demux","pushedAt":"2024-08-20T23:54:56.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"code cleanups","shortMessageHtmlLink":"code cleanups"}},{"before":"7e933e572d4df5a59c04b108fe57d1b96d04fca3","after":"74d6d57c115ab5802c797663f748cf12ebab37f1","ref":"refs/heads/dp-demux","pushedAt":"2024-08-20T23:16:56.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"try to fix edge case","shortMessageHtmlLink":"try to fix edge case"}},{"before":"2447f38ed9e60b5cb3161cd299a1e6f3a7657c76","after":"7e933e572d4df5a59c04b108fe57d1b96d04fca3","ref":"refs/heads/dp-demux","pushedAt":"2024-08-20T21:27:12.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"debug","shortMessageHtmlLink":"debug"}},{"before":"1722a0ca66c69006ff6832d4a32ab71a99275f78","after":"2447f38ed9e60b5cb3161cd299a1e6f3a7657c76","ref":"refs/heads/dp-demux","pushedAt":"2024-08-20T21:07:53.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"bugfix","shortMessageHtmlLink":"bugfix"}},{"before":"9f7aa70ea85846595313e34789b2183b077d1854","after":"1722a0ca66c69006ff6832d4a32ab71a99275f78","ref":"refs/heads/dp-demux","pushedAt":"2024-08-20T20:45:21.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"bugfix","shortMessageHtmlLink":"bugfix"}},{"before":"a94f5dcfd567b0161a3192a5176440ac8646f51a","after":"9f7aa70ea85846595313e34789b2183b077d1854","ref":"refs/heads/dp-demux","pushedAt":"2024-08-20T20:38:33.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dpark01","name":"Daniel Park","path":"/dpark01","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8513746?s=80&v=4"},"commit":{"message":"remove vestigal input","shortMessageHtmlLink":"remove vestigal input"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAErk7uzAA","startCursor":null,"endCursor":null}},"title":"Activity · broadinstitute/viral-pipelines"}